From b3dfdf2235bbf0c711a6a05c8c07b79f3d2d3b67 Mon Sep 17 00:00:00 2001
From: Ivana Klackova <klackova@max-exfl458.desy.de>
Date: Thu, 7 Sep 2023 15:57:22 +0200
Subject: [PATCH] Fixing FF summary perfmorance plots when liframe enabled in
DAQ.
---
...terize_AGIPD_Gain_FlatFields_Summary.ipynb | 48 ++++++++++++++++---
1 file changed, 41 insertions(+), 7 deletions(-)
diff --git a/notebooks/AGIPD/Characterize_AGIPD_Gain_FlatFields_Summary.ipynb b/notebooks/AGIPD/Characterize_AGIPD_Gain_FlatFields_Summary.ipynb
index e5705d148..31bbb92df 100644
--- a/notebooks/AGIPD/Characterize_AGIPD_Gain_FlatFields_Summary.ipynb
+++ b/notebooks/AGIPD/Characterize_AGIPD_Gain_FlatFields_Summary.ipynb
@@ -19,17 +19,17 @@
"metadata_folder = \"\" # Directory containing calibration_metadata.yml when run by xfel-calibrate\n",
"hist_file_template = \"hists_m{:02d}_sum.h5\"\n",
"proc_folder = \"\" # Path to corrected image data used to create histograms and validation plots\n",
- "raw_folder = \"/gpfs/exfel/exp/MID/202030/p900137/raw\" # folder of raw data. This is used to save information of source data of generated constants, required\n",
- "run = 449 # runs of image data used to create histograms\n",
+ "raw_folder = \"\" # folder of raw data. This is used to save information of source data of generated constants, required\n",
+ "run = 38 # runs of image data used to create histograms\n",
"\n",
- "karabo_id = \"MID_DET_AGIPD1M-1\" # karabo karabo_id\n",
+ "karabo_id = \"SPB_DET_AGIPD1M-1\" # karabo karabo_id\n",
"ctrl_source_template = '{}/MDL/FPGA_COMP' # path to control information\n",
- "karabo_id_control = \"MID_EXP_AGIPD1M1\" # karabo-id for control device\n",
+ "karabo_id_control = \"SPB_IRU_AGIPD1M1\" # karabo-id for control device\n",
"\n",
"use_dir_creation_date = True # use the creation data of the input dir for database queries\n",
"cal_db_interface = \"tcp://max-exfl-cal001:8015#8045\" # the database interface to use\n",
"cal_db_timeout = 30000 # in milli seconds\n",
- "local_output = True # output constants locally\n",
+ "local_output = False # output constants locally\n",
"db_output = False # output constants to database\n",
"\n",
"# Fit parameters\n",
@@ -39,7 +39,7 @@
"d0_lim = [10, 70] # hard limits for d0 value (distance between noise and first peak)\n",
"gain_lim = [0.80, 1.2] # Threshold on gain in relative number. Contribute to BadPixel bit \"Gain_deviation\"\n",
"\n",
- "cell_range = [1,5] # range of cell to be considered, [0,0] for all\n",
+ "cell_range = [0,352] # range of cell to be considered, [0,0] for all\n",
"pixel_range = [0,0,512,128] # range of pixels x1,y1,x2,y2 to consider [0,0,512,128] for all\n",
"n_peaks_fit = 4 # Number of gaussian peaks to fit including noise peak\n",
"\n",
@@ -586,6 +586,19 @@
"orig = orig[cell_range[0]:cell_range[1], ...]"
]
},
+ {
+ "cell_type": "code",
+ "execution_count": null,
+ "metadata": {},
+ "outputs": [],
+ "source": [
+ "# Get cell Ids from 1st train\n",
+ "run_data = RunDirectory(run_folder, include)\n",
+ "sel = run_data.select(f'{karabo_id}/DET/0CH0:xtdf', 'image.cellId')\n",
+ "tid0, cell = sel.train_from_index(0)\n",
+ "stacked_cells = stack_detector_data(cell, 'image.cellId')[0, :, 0]"
+ ]
+ },
{
"cell_type": "code",
"execution_count": null,
@@ -594,10 +607,14 @@
"source": [
"# FIXME: mask bad pixels from median\n",
"# mask = const_data['BadPixelsFF']\n",
- "\n",
"corrections = const_data['slopesFF'] # (16,shape[0],512,128) shape[0]= cell_range[1]-cell_range[0] /\n",
"corrections = np.moveaxis(corrections, 1, 0) # (shape[0],16,512,128)\n",
"rel_corr = corrections/np.nanmedian(corrections)\n",
+ "# this is needed if LitFrame is enabled in DAQ to avoid shape mismatch \n",
+ "# and correction of the right cells\n",
+ "if np.diff(cell_range)[0] == mem_cells:\n",
+ " rel_corr = rel_corr[stacked_cells[0]:stacked_cells[-1]+1]\n",
+ "\n",
"corrected = orig / rel_corr"
]
},
@@ -817,6 +834,23 @@
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.11"
+ },
+ "latex_envs": {
+ "LaTeX_envs_menu_present": true,
+ "autocomplete": true,
+ "bibliofile": "biblio.bib",
+ "cite_by": "apalike",
+ "current_citInitial": 1,
+ "eqLabelWithNumbers": true,
+ "eqNumInitial": 1,
+ "hotkeys": {
+ "equation": "Ctrl-E",
+ "itemize": "Ctrl-I"
+ },
+ "labels_anchors": false,
+ "latex_user_defs": false,
+ "report_style_numbering": false,
+ "user_envs_cfg": false
}
},
"nbformat": 4,
--
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